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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtcttcaaaattaatctttatatattacttaattacttaatacgtgttcatttgtctctcaaaatttaaagattttttataagatgttcttcacctttcttataagacttgaacttttatgaaacatcagGAGAACTATACAGCACCTCGGATAGTACTTGCAGCATCTGGTGTTGAACATGAGGAATTGTTATCTGTTGCAGAACCTCTCTTGTCTGATCTACCCAGTG

Basic information

species Glycine max
transcript GLYMA08G03580.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G03580.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os01g53700.1 (Oryza sativa), 3'ss of exon 4
gtaagtcttcaaaattaatctttatatattacttaattacttaatacgtgttcatttgtctctcaaaatttaaagattttttataagatgttcttcacctttcttataagacttgaacttttatgaaacatcagGAGAACTATACAGCACCTCGGATAGTACTTGCAGCATCTGGTGTTGAACATGAGGAATTGTTATCTGTTGCAGAACCTCTCTTGTCTGATCTACCCAGTG
                                         ||| |    |  | ||| |  | | | | |     |||||| | |||   |     | |||   ||| | |||| |  || |||||   |||||| || || ||||||||| |||| || ||||| |||||||| ||||||||||| ||| |  | ||  |||| || || ||  |||| ||||| |||||||
----------------------------------------gtaagattcatcaacttgccatttatattgt-----ttttttgttagaaagtgcgtgc-tttgacatatg-cttgca--ttgatgaat--tcagGAAAATTACACAGCACCTAGGATGGTCCTTGCGGCATCTGGAGTTGAACATGATGAACTAGTTTCAATTGCTGAGCCACTTCTGTCGGATCTTCCCAGTG

upper sequence: GLYMA08G03580.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv11s0016g02870.t01 (Vitis vinifera), 3'ss of exon 4
gtaagtcttcaaaattaatctttatatattacttaattacttaatacgtgttcatttgtc-tctcaaaatttaaagattttttataagatgttcttcacctttcttataagacttgaacttttatgaaacatcagGAGAACTATACAGCACCTCGGATAGTACTTGCAGCATCTGGTGTTGAACATGAGGAATTGTTATCTGTTGCAGAACCTCTCTTGTCTGATCTACCCAGTG
||||||  | || | |     |  || |  | ||  ||    ||  | | ||  |||    | || |  |||   ||| ||||      ||||||| | |  |    |  | ||||  | |||         |||   || ||||| || |||||||| |||||||| || ||||| ||||||||||||||| ||||||||||||||||||| ||  | ||||| ||||||||||
gtaagttgtaaagaatg----tattagaccaatttgttttgcaaaccatattactttacagtgtccatttttctggatctttt-----gtgttcttaagcggtggatt--ggcttgggcattt---------cagTTAAATTATACTGCTCCTCGGATGGTACTTGCGGCTTCTGGGGTTGAACATGAGGAACTGTTATCTGTTGCAGAACCACTTCTCTCTGACCTACCCAGTG
















Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|15204877|gb|BI427645.1|BI427645
EST:     AATCAGCTCTAAATAGACTAAATGGTACAATTCTGGAGGAGTTTGTTGCT                         GAGAACTATACAGCACCTCGGATAGTACTTGCAGCATCTGGTGTTGAACAT
genomic: AATCAGCTCTAAATAGACTAAATGGTACAATTCTGGAGGAGTTTGTTGCTgtaagtcttc ... gaaacatcagGAGAACTATACAGCACCTCGGATAGTACTTGCAGCATCTGGTGTTGAACAT
EST: gi|298182820|gb|HO031555.1|HO031555
EST:     AATCAGCTCTAAATAGACTAAATGGTACAATTCTGGAGGAGTTTGTTGCT                         GAGAACTATACAGCACCTCGGATAGTACTTGCAGCATCTGGTGTTGAACAT
genomic: AATCAGCTCTAAATAGACTAAATGGTACAATTCTGGAGGAGTTTGTTGCTgtaagtcttc ... gaaacatcagGAGAACTATACAGCACCTCGGATAGTACTTGCAGCATCTGGTGTTGAACAT
EST: gi|9258253|gb|BE346400.1|BE346400
EST:     AATCAGCTCTAAATAGACTAAATGGTACAATTCTGGAGGAGTTTGTTGCT                         GAGAACTATACAGCACCTCGGATAGTACTTGCAGCATCTGGTGTTGAACAT
genomic: AATCAGCTCTAAATAGACTAAATGGTACAATTCTGGAGGAGTTTGTTGCTgtaagtcttc ... gaaacatcagGAGAACTATACAGCACCTCGGATAGTACTTGCAGCATCTGGTGTTGAACAT
EST: gi|20075700|gb|BQ094475.1|BQ094475
EST:     AATCAGCTCTAAATAGACTAAATGGTACAATTCTGGAGGAGTTTGTTGCT                         GAGAACTATACAGCACCTCGGATAGTACTTGCAGCATCTGGTGTTGAACAT
genomic: AATCAGCTCTAAATAGACTAAATGGTACAATTCTGGAGGAGTTTGTTGCTgtaagtcttc ... gaaacatcagGAGAACTATACAGCACCTCGGATAGTACTTGCAGCATCTGGTGTTGAACAT
EST: gi|21677192|gb|BQ629543.1|BQ629543
EST:     AATCAGCTCTAAATAGACTAAATGGTACAATTCTGGAGGAGTTTGTTGCT                         GAGAACTATACAGCACCTCGGATAGTACTTGCAGCATCTGGTGTTGAACAT
genomic: AATCAGCTCTAAATAGACTAAATGGTACAATTCTGGAGGAGTTTGTTGCTgtaagtcttc ... gaaacatcagGAGAACTATACAGCACCTCGGATAGTACTTGCAGCATCTGGTGTTGAACAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttataagatgttcttcacctttcttataagacttgaacttttatgaaacatcagGAGAACTATACAGCACCTCGGATAGTACTTGCAGCATCTGGTGTTGAACATGAGGAATTGTTATCTGTTGCAGAACCTCTCTTGTCTGATCTACCCAGTG
                    tttcttataa  TA-rich tract